A5081584590- Bacteriophages and microbial interactions
- Vector-borne infectious diseases
- Genomics and Phylogenetic Studies
- SARS-CoV-2 and COVID-19 Research
- Muscle Physiology and Disorders
- Bacillus and Francisella bacterial research
- Yersinia bacterium, plague, ectoparasites research
- SARS-CoV-2 detection and testing
- Neurogenetic and Muscular Disorders Research
- Vector-Borne Animal Diseases
- RNA and protein synthesis mechanisms
- RNA modifications and cancer
- Plant Pathogens and Fungal Diseases
- Machine Learning in Bioinformatics
- Herpesvirus Infections and Treatments
- Nutrition and Health in Aging
- Fungal Biology and Applications
- Wheat and Barley Genetics and Pathology
- Molecular Biology Techniques and Applications
- Calpain Protease Function and Regulation
- Mycorrhizal Fungi and Plant Interactions
- Virus-based gene therapy research
- Bacterial Genetics and Biotechnology
- Inflammatory Myopathies and Dermatomyositis
- Identification and Quantification in Food
Universität der Bundeswehr München
2015-2024
Institut für Mikrobiologie der Bundeswehr
2015-2024
Friedrich Baur Stiftung
2007-2022
Czech Academy of Sciences, Institute of Microbiology
2016-2021
Ludwig-Maximilians-Universität München
2006-2021
German Center for Infection Research
2020
Technical University of Munich
2007-2018
Institute of Bioinformatics and Systems Biology
2008-2015
Helmholtz Zentrum München
2008-2015
Russian Academy of Sciences
2011
eggNOG is a public resource that provides Orthologous Groups (OGs) of proteins at different taxonomic levels, each with integrated and summarized functional annotations. Developments since the latest release include changes to algorithm for creating OGs across making nested groups hierarchically consistent. This allows better propagation terms led novel annotation 95 890 previously uncharacterized OGs, increasing overall coverage from 67% 72%. The annotations have been expanded also provide...
In December, 2019, the newly identified severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) emerged in Wuhan, China, causing COVID-19, a disease presenting with fever, cough, and often pneumonia. WHO has set strategic objective to interrupt spread of SARS-CoV-2 worldwide. An outbreak Bavaria, Germany, starting at end January, 2020, provided opportunity study transmission events, incubation period, secondary attack rates.
Biotrophic pathogens, such as the related maize pathogenic fungi Ustilago maydis and Sporisorium reilianum, establish an intimate relationship with their hosts by secreting protein effectors. Because secreted effectors interacting plant proteins should rapidly evolve, we identified variable genomic regions sequencing genome of S. reilianum comparing it U. genome. We detected 43 low sequence conservation in otherwise well-conserved syntenic genomes. These primarily encode include previously...
Abstract Armillaria species are both devastating forest pathogens and some of the largest terrestrial organisms on Earth. They forage for hosts achieve immense colony sizes via rhizomorphs, root-like multicellular structures clonal dispersal. Here, we sequenced analysed genomes four performed RNA sequencing quantitative proteomic analysis invasive reproductive developmental stages A. ostoyae . Comparison with 22 related fungi revealed a significant genome expansion in , affecting several...
We present here the clinical, molecular and biochemical findings from 238 limb-girdle muscular dystrophy type 2A (LGMD2A) patients, representing ∼50% (238 out of 484) suspected calpainopathy cases referred for study calpain 3 (CAPN3) gene. The mean age at onset LGMD2A patients was ∼14 years, first symptoms occurred between 6 18 years in 71% patients. which became wheelchair bound 32.2 with 84% requiring use a 21 40 years. There no correlation time patient bound, nor sex risk becoming bound....
The PEDANT genome database provides exhaustive annotation of nearly 3000 publicly available eukaryotic, eubacterial, archaeal and viral genomes with more than 4.5 million proteins by a broad set bioinformatics algorithms. In particular, all completely sequenced from the NCBI's Reference Sequence collection (RefSeq) are covered. processing pipeline has been sped up an order magnitude through utilization precalculated similarity information stored in matrix (SIMAP) database, making it possible...
The Munich Information Center for Protein Sequences (MIPS at the Helmholtz Environmental Health, Neuherberg, Germany) has many years of experience in providing annotated collections biological data. Selected data sets high relevance, such as model genomes, are subjected to careful manual curation, while bulk high-throughput is by automatic means. High-quality reference resources developed past and still actively maintained include Saccharomyces cerevisiae , Neurospora crassa Arabidopsis...
Brucellosis, a worldwide common bacterial zoonotic disease, has become quite rare in Northern and Western Europe. However, since 2014 significant increase of imported infections caused by Brucella (B.) melitensis been noticed Germany. Patients predominantly originated from Middle East including Turkey Syria. These circumstances afforded an opportunity to gain insights into the population structure strains. Brucella-isolates 57 patients were recovered between January June 2016 with culture...
The MIPS Fusarium graminearum Genome Database (FGDB) was established as a comprehensive genome database on one of the most devastating fungal plant pathogens wheat, barley and maize. current version FGDB v3.1 provides information full manually revised gene set based Broad Institute assembly FG3 sequence. results prediction tools were integrated with help comparative data related species to result in 13.718 annotated protein coding genes. This rigorous approach involved adding or modifying...
Due to their economic relevance, the study of plant pathogen interactions is importance. However, elucidating these and underlying molecular mechanisms remains challenging since both host need be fully genetically accessible organisms. Here we present milestones in establishment a new biotrophic model pathosystem: Ustilago bromivora Brachypodium sp. We provide complete toolset, including an annotated fungal genome methods for genetic manipulation fungus its plant. This toolset will enable...
The main reservoir of Coxiella (C.) burnetii are ruminants. They shed the pathogen through birth products, vaginal mucus, faeces and milk. A direct comparison C. excretions between naturally infected sheep goats was performed on same farm to investigate species-specific differences. animals were vaccinated with an inactivated phase I vaccine at beginning study period for public health reasons. Vaginal rectal swabs along milk specimens taken monthly during lambing once again next season. To...
Background: In December 2019, a newly identified coronavirus (SARS-CoV-2) emerged in Wuhan, China, causing respiratory disease (COVID-19) presenting with fever, cough and frequently pneumonia. WHO has set the strategic objective to interrupt virus spread of SARS-CoV-2 worldwide. An outbreak Bavaria, Germany, starting end January 2020, gave opportunity study transmission events, incubation period, attack rates.Methods: A case was defined as person SARS-CoV-2-infection confirmed by PCR. Case...
Controlling and monitoring the still ongoing severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) pandemic regarding geographical distribution, evolution, emergence of new mutations SARS-CoV-2 virus is only possible due to continuous next-generation sequencing (NGS) sharing sequence data worldwide. Efficient strategies enable retrieval increasing numbers high-quality, full-length genomes are, hence, indispensable. Two opposed enrichment methods, tiling multiplex PCR hybridization by...
(1) Background: MALDI-TOF mass spectrometry (MS) is the gold standard for microbial fingerprinting, however, phylogenetically closely related species, resolution power drops down to genus level. In this study, we analyzed spectra from 44 strains of B. melitensis, suis and abortus identify optimal classification method within popular supervised unsupervised machine learning (ML) algorithms. (2) Methods: A consensus feature selection strategy was applied pinpoint among 500 MS features those...
Systematic research on the effect of Charcot-Marie-Tooth (CMT) disease outcome pregnancy and conversely neuropathy is still sparse. A clinical cohort study cross-sectional within German CMT-NET was conducted between 2016 2019. Inclusion criteria were a confirmed diagnosis CMT at least one completed after 1990. All participants agreed to fill in questionnaires have their medical files reviewed. The group comprised 54 women with total 98 pregnancies. mean age onset 12.6 years (range 0-37...
Bacterial infectious diseases are the result of multifactorial processes affected by interplay between virulence factors and host targets. The host-Pseudomonas Coxiella interaction database (HoPaCI-DB) is a publicly available manually curated integrative (http://mips.helmholtz-muenchen.de/HoPaCI/) host–pathogen data from Pseudomonas aeruginosa burnetii. resource provides structured information on 3585 experimentally validated interactions molecules, bioprocesses cellular structures extracted...
The acute disease antigen A (adaA) gene is believed to be associated with Coxiella burnetii strains causing Q fever. detailed analysis of the adaA genomic region 23 human- and 86 animal-derived C. isolates presented in this study reveals a much more polymorphic appearance distribution gene, resulting classification better differentiation than previously anticipated. Three different variants were identified which could detected from chronic patients, rendering association positive fever...
We present the whole genome sequence and annotation of Coxiella burnetii strain Namibia. This was isolated from an aborting goat in 1991 Windhoek, The plasmid type QpRS confirmed our work. Further genomic typing placed into a unique group. is 2,101,438 bp long contains 1,979 protein-coding 51 RNA genes, including one rRNA operon. To overcome poor yield cell culture systems, additional DNA enrichment with amplification (WGA) methods applied. describe bioinformatics pipeline for improved...
Coxiella burnetii strain AuQ01 was isolated from the serum of an Australian acute Q fever patient and represents first whole genome this historical country. This new shows distinct differences existing genomic data will enhance understanding query pathogen.
Cases of pox-like lesions in horses and donkeys have been associated with poxviruses belonging to different genera the family Poxviridae. These include orthopoxviruses vaccinia virus (VACV), horsepoxvirus (HPXV) cowpoxvirus (CPXV), as well a potentially novel parapoxvirus molluscum contagiosum (MOCV). However, exception VACV, HPXV CPXV, genomic characterization causative agents remains largely elusive only single short genome fragments available. Here we present first full-length sequence an...
In July 2018, brucellosis was diagnosed in a German patient without travel history to regions endemic for Brucella. Microbiological analysis, including whole-genome sequencing, revealed Brucella suis biovar 1 as the etiologic agent. Core-genome-based multilocus sequence-typing analysis placed isolate close proximity strains originating from Argentina. Notably, despite strong IgM response, did not develop Brucella-specific IgG antibodies during infection. Here, we describe clinical course of...